MmuINT0139965 @ mm10
Intron Retention
Gene
ENSMUSG00000020877 | Scrn2
Description
secernin 2 [Source:MGI Symbol;Acc:MGI:1343092]
Coordinates
chr11:97029938-97030589:+
Coord C1 exon
chr11:97029938-97030055
Coord A exon
chr11:97030056-97030415
Coord C2 exon
chr11:97030416-97030589
Length
360 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGA
5' ss Score
6.65
3' ss Seq
ACATCTCCACTTCTTCGCAGATG
3' ss Score
8.48
Exon sequences
Seq C1 exon
GGGGACAAAGGCCTTCCAGGTCACCTACCAGAGAACCTGGGTCCAGGGGAACAGATCTGACCTGAAGAGGAGGAAGTGGCGCCCGGAACCGAGCCTGGGGGTCTTGGATGCAGAGAGG
Seq A exon
GTGAGAGACCGAGGCACTGAGGACTTGGAAAGGGGTGGACGGAAGAGGCGCGTGAATGTGGGCATGCGCAGGAGCGTGGGATTCTTGGAGCCAGCTTTAGTGCCTAGAAACTACCCTGTAAGTCAGCCTGGAAGGGCTAGGACTCCAAAACAGACGCTCTTAACTTGCAGAGTTTGCTCTGTCGCCTGACTCCAAGCCAAGTGCATTGTTAGTGCACACCACGCTTTGACAACAGTGCTGTTGTCCCAGAGCGTCAGGCTTCTCAGAGTGCACACGTGGGGAGGAGAGTGCCCTGCACCCCACCGGTGGCCAAGACTGTGGAGAGGTTTGAGGGACATGAACATCTCCACTTCTTCGCAG
Seq C2 exon
ATGGCGTCGTCGAGCCCCGATGCCCCTTGTTCCTGCGACTGTTTTGTCTCTGTGCCCCCGGCCTCAGCCATCCCAGCTGTAATCTTTGCAAAGAACTCAGACCGGCCCCGAGATGAGGTGCAGGAGGTGGTGTTTATACCAGCAGGCACTCACGTCCCTGGGAGCCGGCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020877:ENSMUST00000021249:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGACAAAGGCCTTCCAGGTC
R:
CTGAAGCCGGCTCCCAGG
Band lengths:
290-650
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types